Array 1 138633-139050 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000011.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000011, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 138633 29 100.0 37 ............................. GTATCAGTTTCATAAACTGTAACTAAATCATCTGCTA 138699 29 100.0 36 ............................. GGTAATTAAATTTTTCCCTTCTAGACTTGCATACAC 138764 29 100.0 36 ............................. CACATCTGCTTTGGGAATATTTTCTGCTCTAATTTC 138829 29 100.0 36 ............................. CTTATCGCAAAAGGGGCAAAACCATTATTTAAATCT 138894 29 100.0 34 ............................. TAAAATAATGACGCTAATAACATCATATATTTTA 138957 29 96.6 36 ...............A............. AGTAGACAATATCATTTTTGCAATTATAAAGATTTT 139022 29 93.1 0 G..............A............. | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 98.5 36 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : TAGAGTGGAGTTCATGTACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTTCATGGATAACTTTTTGTTTAATGTTTTAGCTAGTTTAACAGCTAGTGTGGTAGTTTACTTAATCAGTAAACTATTCAAAAAAGCAAAAAGCCACTCTCGCACAAAGAGTGACTTACGAGTTGAATTTAAATTTATATTTAAATCCAAAAAATAAACTCTGTTTATGATGAACTCCACTCTAACGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTAGTACAGATATTCAAAAATAATATTTTTTTTGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAGATATGAGGCATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAGATATTGAAAATACTTAGTTTATTTTGGG # Right flank : GAATGATATATCAGGAGTAGTATATATTGTAATGGATTCAGAAGGAGCGTGGGAATTTAAGATTGCAAAGGAAATGGAAGAGTCTGAATATCAGATAGACTTAAATAAAATCTTATAAAATAAATAAAATAGAGTGGTCCATGACTACTCTATTTTATTTTTAGTGTTTATATATTATTTATCTCTTTTTTTCAACTCTTCATCTATAAAATGACAAGCTAATAATAGCGGACTGATTTCTAAGCCAATTGACAAATCAACTATAGTTGGTATTGTAATATTTTTGTATTTGTTTCTTTCTAAATCAGATATATACTCTCGACTATAGTTAGTTCTATTTGCTAATTCTTTTTGTGTTAAACCTCTTAAAATCCTTAAATCTTTTAACATGCCTGTTTCCTCCTAAAGTATTATAGATAATCTATTTTTTACATATAGAAAAAAACAATGCGGTTAATAGCAACATTTTTTTTGTGGAAATTTGTGGTAGAATGTAGTTA # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTTTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-66.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 172308-171422 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000001.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 172307 29 100.0 38 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGAC 172240 29 100.0 37 ............................. TTATTTTTATTTAATATTTATCTTTAAAAATTATAAA 172174 29 100.0 37 ............................. TGCGGTAATACCTATCTAATGTTTCTAGCTGTGTACT 172108 29 100.0 36 ............................. AAAATCAAAGGCAACATCATAGTCACGTATATTATC 172043 29 100.0 37 ............................. TAATAGAAACTGTTAATTTTATAAAAGGGTAAAAATG 171977 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 171910 29 100.0 37 ............................. ATGTTTGGGCTAATAGATGGTGATGCTGTCAATTATG 171844 29 100.0 35 ............................. TAGAAGATGATTTAAACTTTTCGGGTAAATCGCCA 171780 29 100.0 37 ............................. TCATTTGAGTTCTAAGTTCATCATTGTATGGTAGTTC 171714 29 100.0 38 ............................. TTTCGACCCGGTATATTTATTTTTTCAATCAAACGTTG 171647 29 100.0 37 ............................. TACTTTTTGAGTTCATAATTTGCATACTTAACCTCTA 171581 29 96.6 37 ..........G.................. TCAGGGTATGACTATTTATCTACTAGAGAAATTGACA 171515 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 171450 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 98.8 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TTTAGAAACATACAAAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCTATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATCTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 79223-78094 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000019.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000019, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 79222 29 100.0 37 ............................. AAGAAATCGGCAAAATACCTTTCATAGCATCCATAAC 79156 29 100.0 36 ............................. ATATAAATTCGTTACTTCATCATAGACGACAGGTCT 79091 29 100.0 36 ............................. ATTTTTTTGCAAGGAACTTTGCAAAAAGAAGAAGAA 79026 29 100.0 37 ............................. CCTCATGACAACAGAATAAATAAAATAAATTAACATA 78960 29 100.0 37 ............................. AAATTTGCAATAACATCTTTCTTTTGAATAAATAATC 78894 29 100.0 37 ............................. TCACTCTGACTAGGTACATCAACAGGTTTGCTAGGAT 78828 29 100.0 36 ............................. TGGGCTATAATAAAAAACAGATGGGGTGGAGCTTCT 78763 29 100.0 37 ............................. GATTGTTCAAGTGGCATATTTAAGTTTTTAAACATTC 78697 29 100.0 38 ............................. ATAAGTGACATACAAAAAAACTTTAAAAGGAAGAACTC 78630 29 100.0 37 ............................. CTTTAGAATCAGTGAGTATTAAGAATCTATATCCATG 78564 29 100.0 37 ............................. AAAAATTTGATTAAAGATTATTCAAAGTCTTTTGATT 78498 29 100.0 36 ............................. AGTAATGTCTTCCAAACATTAAAGGGAATAGTAGTC 78433 29 100.0 35 ............................. TTGTAGTGCCTAGTTACTACTCTCACCCCTTCATG 78369 29 96.6 38 ...........G................. CAGCTTTCTTTTTTAGATTGCATAATTGATTATACTTA 78302 29 100.0 36 ............................. CTGGATGTTTCAAATTCATATCTCATTTCTTCATTC 78237 29 100.0 37 ............................. TATATAAAAAATAAAATAAATAAAAGTAACACTTTAT 78171 29 100.0 18 ............................. TTTTCATCTATTGCATTA Deletion [78125] 78124 29 79.3 0 A.G.A...A........C.........G. | AG [78114] ========== ====== ====== ====== ============================= ====================================== ================== 18 29 98.7 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATGATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [80.0-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 152362-151481 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000003.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 152361 29 100.0 37 ............................. GAGGTGCAGGAGGTAAAAGTACCAGTACCCCCAAAAC 152295 29 100.0 37 ............................. AACTATAAAACAGGTGACGAAGCTTTAAAGTTTTATC 152229 29 100.0 37 ............................. AGATTGGTTTCTGTAGAAGTTCCTGGAGAGTCTGAAG 152163 29 100.0 36 ............................. TTAACTTTCTTATTAAGTTGAAAATACTGAGTTAAA 152098 29 100.0 36 ............................. TAAGTTCAAATAGATTCATTTAATTATGAACTTCAC 152033 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 151967 29 100.0 36 ............................. GTGTTAAATTGGTATTTTCTCTTGCTTTTTGATAAA 151902 29 100.0 38 ............................. GTACTATTTCCAACTTTTTTTTCGAGTTCTGAATACTC 151835 29 100.0 37 ............................. TGTAAAATGTGACAATTTCAGTCTCTTTACTCTGCAA 151769 29 100.0 37 ............................. AAAGTTTTGAAAGGCGAAAATCTTATTTTTTCAGATA 151703 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGATACAGTGTCAG 151637 28 82.8 36 .........C.......-....GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 151573 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 151509 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATAGGATTACAT # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [19-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [81.7-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 2068-2229 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000036.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000036, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 2068 30 100.0 35 .............................. AAATTTCTCTTTATCAAACTTATAAGTTTTACCTA 2133 30 100.0 37 .............................. CAGTTTTTCGTTTGATTGGCTCTATCTTTAAAAAAGT 2200 30 90.0 0 .....................C.TA..... | ========== ====== ====== ====== ============================== ===================================== ================== 3 30 96.7 36 GTTTTAGATTAACTATATGGAATGTAAATT # Left flank : TTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTATTTTAGCTAGCTATATAGTTTACTTAACTAGTAAGTTATTTAAAAAAGTAAAAAGCCACTCAAACACGACTAAGAGTGACTTTGATTTTAAACTTACAATCAAGTTTAAAAGAAATAAACATTAATTTTTAGAACTTCACTCTAGTTTCAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATATTTGCGATAAATTGAAGTTTAACAGTTGAGATATGAGGCATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAAATACTGAAAAACACTTACTCAGGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACGCATATAGTATAATATTGGTAAAGAATATAATTTAGGGGGATATTATATTATGGATTTTTTTAAAAAAATAGCTAAAACTATTTTATTTTTATTTTTTAATATATGTTTATTTATGTTTACTATAGTTGGAATTTTAGCGATTCAACAAAAAAATATTCCAGCGAGCTTGATTTGTTTTTCAATTGTAGTAATTATACTATTATTATGTTATGGAAAAAAAATAAAACAAATTTCAGTACTAAAGATAAAGGAAAATACTAAGAAAGATGTGAATTTTGACAGTGAGAATTTTCAAAAACAAAATATACTAAATAGAAAAAGTAATATTCTAGAACAGAAAGAAGAAAAACAAAAAATGCCTATAGGTTGTATAGTTATCATTTTATTCGCTATTTTACTTATATCTTTAACTCTTTATACTTT # Questionable array : NO Score: 5.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAATT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:80.00%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 1 118262-119148 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000005.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000005, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 118262 29 100.0 36 ............................. AACATAATTATAACATAGGAGTTCATTAAATGAAAA 118327 29 100.0 37 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGA 118393 29 100.0 37 ............................. TTAAAAATAAAGGGTTTAGAGAGTATATGTATAGAGT 118459 29 100.0 36 ............................. ACAACAGGAACATCAACTGGTGGGTCTATTGGAGGG 118524 29 100.0 37 ............................. AGCAAGATACTGCAAATATTTATATACACCAAACATT 118590 29 100.0 38 ............................. ACAGTAGGAATAGGGTCTACTGGAGGGTCAACAGGTGG 118657 29 100.0 37 ............................. CTAATAAGACTAATAACATCTGAATTATTTATATTTA 118723 29 100.0 38 ............................. TTGAAATTACTTACATATAGGTCTATTTAATTAATCAT 118790 29 100.0 37 ............................. TTGAAACTTACTACACCAGTTTTAGTAGTTCCAGCTA 118856 29 100.0 37 ............................. ACAGCAGTAGCAACACCCTCTTCAGCAGCAAAACAAG 118922 29 100.0 36 ............................. TATTTATTGCACCTTCACCATCAAGTGCAACATGTT 118987 29 100.0 38 ............................. TAAACTGTTGGTTCTACTGGTGTTTCTTCTTTATTTAA 119054 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 119120 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 97.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAATATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [65.0-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 61337-59997 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000008.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000008, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 61336 29 100.0 38 ............................. ACGTTAGATGTTGTAACCTGTTTAGGTTTAATTAGTAC 61269 29 100.0 36 ............................. TTTAAACGAAACACTTGAAATAGTTGACGTAGTAGC 61204 29 100.0 36 ............................. TTAATTTTTTTATTAAGTTGAAAATACTGAGTTAAA 61139 29 100.0 36 ............................. GATTTTTCTGCTTCGACTGGTGTTATTGAGACTTTT 61074 29 100.0 37 ............................. ATACACTTGAATAGTTCTGAAGAACTCAAAAACTATG 61008 29 100.0 37 ............................. TTTAACAATGCCTTTTCAATTTCGTTTATTTTTTCAA 60942 29 100.0 37 ............................. AATTAACGCATCTGCTATTGCTCCTTTTTCTATCCAC 60876 29 100.0 37 ............................. CTTTCTATATGTTCATTTTACTACATAATTAAATCGT 60810 29 100.0 36 ............................. AAAAATCACCCCTTTAAAAAAATTCGCGAGTACACT 60745 29 100.0 36 ............................. AAAGTATAAACAAGCAGTTCTTTCTTTAAATAATGA 60680 29 100.0 37 ............................. TGTTGAAAATAAAGACTTTACAGTAGTTACAACACTA 60614 29 100.0 30 ............................. CTTTCATTATTTTTTCTTCTAACTCTTTCA 60555 29 100.0 37 ............................. AATCGTGTTTACACACTTGAATATAGAAGTAAATTTT 60489 29 100.0 37 ............................. CGTGATTATAAAATTGAAAACGGAAAATTTGTATTAA 60423 29 100.0 37 ............................. TACTTAAAAAATTTTTTCGTCTGCATGTAAAAATAGA 60357 29 100.0 36 ............................. AGTGAATGTGACCAATTTTGTGACGAATTATCAGAG 60292 29 100.0 38 ............................. TGGTTAAATCTCCAACAGAACATTTATCTAAATTACAA 60225 29 100.0 39 ............................. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 60157 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 60091 29 93.1 37 ...............T.A........... CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 60025 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 21 29 99.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTATTCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACCACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 107960-109036 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000009.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 107960 29 100.0 37 ............................. ATCAGCACGTGGTGGGTACTGTTCGTAATATTAGTTA 108026 29 100.0 37 ............................. GTAGGAAAAAGTAGTTTTCCTGTATCGTCTTTATATG 108092 29 100.0 36 ............................. TAGATTATTTTACTACTAAACTTAACGAGTACAATG 108157 29 100.0 38 ............................. CACACTAAATACTGCTATGGTGATAAACACTCTGACCA 108224 29 100.0 36 ............................. GAAAGAAAAACCAAGAATAAGAGCCCAGATAAAAGC 108289 29 100.0 37 ............................. ATTTCTGGGACTGTTACAGTTCCTAAAGTTGAAAATC 108355 29 100.0 37 ............................. ATGTTGATCAAAAAATTCAAGCCAAGAAAGTCTATCT 108421 29 100.0 39 ............................. TCAGCCGCCTCACTTGCTGAAAATGAAGTTCTAGCTCCA 108489 29 100.0 38 ............................. CTAAAAAATCAACATAATTTTAGTGGAGTTTTTTAAAA 108556 29 100.0 36 ............................. CGTACCAAACGAGAAAATGACTTCATACTCAACCCT 108621 29 100.0 37 ............................. TGACCTAACCTAACAATGTATTGATTTCCTCCACCTA 108687 29 100.0 36 ............................. AATTTATATTTAAAATTATACACTAGACTTCTAAAA 108752 29 100.0 37 ............................. GAGGTAAAAACTGTTCATGGAAGTGACATGGATACAG 108818 29 100.0 36 ............................. TACTCTCCGTATTCGTCATCAATTCTATCTTGAATA 108883 29 96.6 37 ............................A TGATAATAAGACTGAAAATAGTGCGAGTATTTCATTA 108949 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [109007] 109007 29 69.0 0 AC..........TA...CAT.T.C..... | T [109013] ========== ====== ====== ====== ============================= ======================================= ================== 17 29 97.6 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAACAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAATTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [75.0-85.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 154657-155015 **** Predicted by CRISPRDetect 2.4 *** >NZ_MPER01000009.1 Clostridioides difficile strain 6637-AL/ST58 LCH6637_contig000009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 154657 29 100.0 37 ............................. TTGGCATATCTCCACTTACATCCATTGCCCTATATCC 154723 29 100.0 38 ............................. AATAGGTGCTTTTGAAGTAACATCAAAAAAATCAAAAA 154790 29 100.0 37 ............................. CGGTGTATAATCTATCGCATTTACTACAGCTTTATTT 154856 29 100.0 37 ............................. AGTGTTTAGTCGGCTACCCCTGTACTCTGTCGAGCCA 154922 29 100.0 36 ............................. GATAGCAAAGCTTGCAAAGTAGATATTTGTGTTTTT 154987 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 99.4 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:72.41%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //